Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: Ocean
https://packages.ecosyste.ms/registries/pypi.org/packages/Ocean
GUI library with opengl renderer
1 version
Latest release: about 1 year ago
Papers Mentioning Ocean 53
10.3389/fninf.2021.561689
QDECR: A Flexible, Extensible Vertex-Wise Analysis Framework in RCited by: 13
Author(s): Sander Lamballais, Ryan L. Muetzel
Software Mentions: 9
Published: over 3 years ago
10.1186/s13059-020-02067-3
Genome-wide analyses of chromatin interactions after the loss of Pol I, Pol II, and Pol IIICited by: 81
Author(s): Yongpeng Jiang, Jinfeng Huang, Kehuan Lun, Boyuan Li, Haonan Zheng, Yuanjun Li, Rong Zhou, Duan Wenjia, Chenlu Wang, Yuanqing Feng, Huilu Yao, Cheng Li, Ji Xiong
Software Mentions: 5
Published: over 4 years ago
10.1186/s12859-020-03725-w
Seagull: lasso, group lasso and sparse-group lasso regularization for linear regression models via proximal gradient descentCited by: 15
Author(s): Jan Klosa, Noah Simon, Pål O. Westermark, Volkmar Liebscher, Dörte Wittenburg
Software Mentions: 5
Published: about 4 years ago
10.1098/rspb.2019.2253
Lens transmittance shapes ultraviolet sensitivity in the eyes of frogs from diverse ecological and phylogenetic backgroundsCited by: 14
Author(s): Carola A. M. Yovanovich, Michele E. R. Pierotti, Almut Kelber, Gabriel Jorgewich-Cohen, Roberto Ibáñez, Taran Grant
Software Mentions: 4
Published: almost 5 years ago
10.1371/journal.pone.0236540
Harnessing the power of eDNA metabarcoding for the detection of deep-sea fishesCited by: 38
Author(s): Beverly McClenaghan, Nicole A Fahner, David Côté, Julek Chawarski, Avery McCarthy, Hoda Rajabi, Gregory A. C. Singer, Mehrdad Hajibabaei
Software Mentions: 4
Published: about 4 years ago
10.1038/s41597-019-0174-7
Creating reproducible pharmacogenomic analysis pipelinesCited by: 5
Author(s): Anthony Mammoliti, Alexander Smirnov, Zhaleh Safikhani, Wail Ba-Alawi, Benjamin Haibe‐Kains
Software Mentions: 3
Published: about 5 years ago
10.1371/journal.pone.0231574
Genetic diversity and connectivity of Flaccisagitta enflata (Chaetognatha: Sagittidae) in the tropical Atlantic ocean (northeastern Brazil)Cited by: 6
Author(s): Danielle C M Melo, Simone Maria de Albuquerque Lira, Ana Paula B. Moreira, Lucas Freitas, Camilla A D Lima, Fabiano L. Thompson, Arnaud Bertrand, Alex C. Silva, Sigrid Neumann‐Leitão
Software Mentions: 3
Published: over 4 years ago
10.1128/mSphere.00454-21
A Novel Phage Infecting <i>Alteromonas</i> Represents a Distinct Group of Siphophages Infecting Diverse Aquatic CopiotrophsCited by: 16
Author(s): Ruijie Ma, Jiayong Lai, Xiaowei Chen, Long Wang, Yue Yang, Shuzhen Wei, Nianzhi Jiao, Rui Zhang
Software Mentions: 3
Published: over 3 years ago
10.1002/ece3.7443
Qualitative and quantitative methods show stability in patterns of <i>Cepaea nemoralis</i> shell polymorphism in the Pyrenees over five decadesCited by: 3
Author(s): Daniel Ramos Gonzalez, Angus Davison
Software Mentions: 3
Published: over 3 years ago
10.1039/c7sc04531j
Tinker-HP: a massively parallel molecular dynamics package for multiscale simulations of large complex systems with advanced point dipole polarizable force fieldsCited by: 183
Author(s): Louis Lagardère, Luc‐Henri Jolly, Filippo Lipparini, Félix Aviat, Benjamin Stamm, Zhifeng Jing, Matthew Harger, Hedieh Torabifard, G. Andrés Cisneros, Michael J. Schnieders, Nohad Gresh, Yvon Maday, Pengyu Ren, Jay W. Ponder, Jean‐Philip Piquemal
Software Mentions: 3
Published: almost 7 years ago
10.1186/s12859-020-03726-9
IonCRAM: a reference-based compression tool for ion torrent sequence filesCited by: 2
Author(s): Moustafa Shokrof, Mohamed Abouelhoda
Software Mentions: 3
Published: about 4 years ago
10.1100/2012/612048
Seasonality of Tropical Instability Waves and Its Feedback to the Seasonal Cycle in the Tropical Eastern PacificCited by: 13
Author(s): Seul Hee Im, Soon Il An, Matthieu Lengaigne, Yign Noh
Software Mentions: 2
Published: almost 13 years ago
10.1186/s12911-016-0376-2
Open data models for smart health interconnected applications: the example of openEHRCited by: 17
Author(s): Hans Demski, Sebastian Garde, Claudia Hildebrand
Software Mentions: 2
Published: about 8 years ago
10.1371/journal.pone.0059954
Benthic-Pelagic Coupling: Effects on Nematode Communities along Southern European Continental MarginsCited by: 25
Author(s): Ellen Pape, Daniel O. B. Jones, Elena Manini, Tania Nara Bezerra, Ann Vanreusel
Software Mentions: 2
Published: over 11 years ago
10.1111/eva.12055
Spatiotemporal SNP analysis reveals pronounced biocomplexity at the northern range margin of<scp>A</scp>tlantic cod<i><scp>G</scp>adus morhua</i>Cited by: 96
Author(s): Nina Overgaard Therkildsen, Jakob Hemmer‐Hansen, Rasmus Hedeholm, Mary S. Wisz, Christophe Pampoulie, Dorte Meldrup, Sara Bonanomi, Anja Retzel, Steffen M. Olsen, Einar Eg Nielsen
Software Mentions: 2
Published: over 11 years ago
10.5194/gmd-12-3071-2019
Simulating lightning NO production in CMAQv5.2: evolution of scientific updatesCited by: 19
Author(s): Daiwen Kang, Kenneth Pickering, D. J. Allen, Kristen M. Foley, David C. Wong, Rohit Mathur, Shawn J. Roselle
Software Mentions: 2
Published: over 5 years ago
10.1002/acm2.12363
Applying three different methods of measuring <i>CTDI</i> <sub> <i>free air</i> </sub> to the extended CTDI formalism for wide-beam scanners (IEC 60601-2-44): A comparative studyCited by: 6
Author(s): Robert Bujila, Love Kull, Mats Danielsson, Jonas Andersson
Software Mentions: 2
Published: over 6 years ago
10.1038/s41598-020-71563-0
Ocean model resolution dependence of Caribbean sea-level projectionsCited by: 12
Author(s): René M. van Westen, Henk A. Dijkstra, Carine G. van der Boog, Caroline A. Katsman, Rebecca K. James, Tjeerd J. Bouma, Olga Kleptsova, R. Klees, Riccardo Riva, Cornelis Slobbe, Marcel Zijlema, Julie D. Pietrzak
Software Mentions: 2
Published: about 4 years ago
10.1038/s41598-021-95482-w
Multi-qubit correction for quantum annealersCited by: 12
Author(s): Ramin Ayanzadeh, John E. Dorband, M. Halem, Tim Finin
Software Mentions: 2
Published: over 3 years ago
10.2196/20239
Development of an openEHR Template for COVID-19 Based on Clinical GuidelinesCited by: 21
Author(s): Mengyang Li, H.A. Leslie, Bin Qi, Shan Nan, Hongshuo Feng, Hailing Cai, Xudong Lü, Huilong Duan
Software Mentions: 2
Published: over 4 years ago
10.1186/s12983-017-0248-3
Different feeding strategies in Antarctic scavenging amphipods and their implications for colonisation success in times of retreating glaciersCited by: 13
Author(s): Meike Anna Seefeldt, Gabriela Laura Campana, Dolores Deregibus, María Liliana Quartino, Doris Abele, Ralph Tollrian, Christoph Held
Software Mentions: 1
Published: almost 7 years ago
10.1371/journal.pone.0103195
Diversity and Distribution of Deep-Sea Shrimps in the Ross Sea Region of AntarcticaCited by: 28
Author(s): Zeenatul Basher, David A. Bowden, Mark J. Costello
Software Mentions: 1
Published: over 10 years ago
10.1186/s13059-021-02299-x
Promoting reproducibility with Code OceanCited by: 6
Author(s): Barbara Cheifet
Software Mentions: 1
Published: over 3 years ago
10.2196/24382
Using Information Technology to Assess Patient Risk Factors in Primary Care Clinics: Pragmatic EvaluationCited by: 3
Author(s): Leanne Kosowan, Alan Katz, Gayle Halas, Lisa LaBine, Alexander Singer
Software Mentions: 1
Published: almost 4 years ago
10.1093/icesjms/fsaa227
Strengthening the global network for sharing of marine biological collections: recommendations for a new agreement for biodiversity beyond national jurisdictionCited by: 7
Author(s): Jane Eva Collins, Muriel Rabone, Thomas Vanagt, Diva J. Amon, Judith Gobin, Isabelle Huys
Software Mentions: 1
Published: almost 4 years ago
10.1120/jacmp.v15i5.4901
Evaluation of gantry rotation overrun in axial CT scanningCited by: 6
Author(s): Atsushi Fukuda, Pei‐Jan Paul Lin, Kosuke Matsubara, Tosiaki Miyati
Software Mentions: 1
Published: about 10 years ago
10.1120/jacmp.v15i1.4517
Measurement of gantry rotation time in modern ctCited by: 10
Author(s): Atsushi Fukuda, Pei‐Jan Paul Lin, Kosuke Matsubara, Tosiaki Miyati
Software Mentions: 1
Published: almost 11 years ago
10.3390/ijerph120201069
Delineating Biophysical Environments of the Sunda Banda Seascape, IndonesiaCited by: 15
Author(s): Mingshu Wang, Gabby N. Ahmadia, Iliana Chollett, Charles Huang, Helen E. Fox, Anton Wijonarno, Marguerite Madden
Software Mentions: 1
Published: almost 10 years ago
10.1002/acm2.12670
Assessment of longitudinal beam property and contrast uniformity for 256‐ and 320‐row area detector computed tomography scanners in the 160‐mm nonhelical volume‐acquisition modeCited by: 6
Author(s): Takanori Hara, Shin‐Ichi Niwa, Atsushi Urikura, Kosuke Matsubara, Takashi Hoshino, Eiji Nishimaru, Tetsuo Taniguchi
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0086130
Impacts of Climate-Change-Driven Sea Level Rise on Intertidal Rocky Reef Habitats Will Be Variable and Site SpecificCited by: 17
Author(s): Jaqueline Thorner, Lalit Kumar, Stephen Smith
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pbio.1001947
The Common Oceanographer: Crowdsourcing the Collection of Oceanographic DataCited by: 35
Author(s): Federico M. Lauro, Svend Jacob Senstius, Jay T. Cullen, Russell Y. Neches, Rachelle M. Jensen, Mark V. Brown, Aaron E. Darling, Michael Givskov, Diane McDougald, Ron Hoeke, Martin Ostrowski, Gayle K. Philip, Ian T. Paulsen, Joseph J. Grzymski
Software Mentions: 1
Published: about 10 years ago
10.1038/srep37180
Overlooked Role of Mesoscale Winds in Powering Ocean Diapycnal MixingCited by: 4
Author(s): Zhao Jing, Lixin Wu, Xiaoyan Ma, Ping Chang
Software Mentions: 1
Published: almost 8 years ago
10.1038/s41598-017-00593-y
A peculiar lens-shaped structure observed in the South China SeaCited by: 11
Author(s): Hongyang Lin, Jianyu Hu, Zhiyu Liu, Igor M. Belkin, Zhenyu Sun, Jia Zhu
Software Mentions: 1
Published: over 7 years ago
10.1038/s41598-018-34786-w
Applicability of Dynamic Energy Budget (DEB) models across steep environmental gradientsCited by: 24
Author(s): Cristián J. Monaco, Christopher D. McQuaid
Software Mentions: 1
Published: about 6 years ago
10.1038/s41598-020-64580-6
Elevated primary productivity triggered by mixing in the quasi-cul-de-sac Taiwan Strait during the NE monsoonCited by: 7
Author(s): Ting-Hsuan Huang, Chen‐Tung Arthur Chen, Yan Bai, Xianqiang He
Software Mentions: 1
Published: over 4 years ago
10.3390/nu12040894
Exploring the Perceptions of Women from Under-Resourced South African Communities about Participating in a Low-Carbohydrate High-Fat Nutrition and Health Education Program: A Qualitative Focus Group StudyCited by: 3
Author(s): Georgina Pujol-Busquets, James Smith, Kate Larmuth, Sergi Fàbregues, Anna Bach-Faig
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-020-73890-8
Estimating soil water retention for wide ranges of pressure head and bulk density based on a fractional bulk density conceptCited by: 6
Author(s): Huihui Sun, Jae‐Hoon Lee, Xijuan Chen, Jie Zhuang
Software Mentions: 1
Published: about 4 years ago
10.1038/s41598-020-77315-4
Electronic structure with direct diagonalization on a D-wave quantum annealerCited by: 18
Author(s): Alexander Teplukhin, Brian K. Kendrick, Sergei Tretiak, Pavel A. Dub
Software Mentions: 1
Published: almost 4 years ago
10.1038/s41598-021-82197-1
Adaptive hyperparameter updating for training restricted Boltzmann machines on quantum annealersCited by: 5
Author(s): Guanglei Xu, William S. Oates
Software Mentions: 1
Published: almost 4 years ago
10.1007/s10943-017-0397-x
“No More Buzz”: A Qualitative Study of the Current Response to HIV in the Anglican Church in the Western Cape, South AfricaCited by: 1
Author(s): Simon Hallonsten
Software Mentions: 1
Published: over 7 years ago
10.1186/s40814-019-0501-y
A virtual reality intervention for fear of movement for Veterans with chronic pain: protocol for a feasibility studyCited by: 11
Author(s): Christopher A. Fowler, Lisa Ballistrea, Kerry E Mazzone, Aaron M. Martin, Howard Kaplan, Kevin E. Kip, Jennifer L. Murphy, Sandra Winkler
Software Mentions: 1
Published: almost 5 years ago
10.3390/s120100373
Marine Vehicle Sensor Network Architecture and Protocol Designs for Ocean ObservationCited by: 18
Author(s): Shaowei Zhang, Jiancheng Yu, Aiqun Zhang, Lüxi Yang, Yeqiang Shu
Software Mentions: 1
Published: almost 13 years ago
10.3390/s19030702
A Survey on Unmanned Surface Vehicles for Disaster Robotics: Main Challenges and DirectionsCited by: 92
Author(s): Vitor A. M. Jorge, Roger Granada, Renan G. Maidana, Darlan A. Jurak, Guilherme Heck, Alvaro Negreiros, Davi Henrique dos Santos, Luiz Marcos Garcia Gonçalves, Alexandre M. Amory
Software Mentions: 1
Published: almost 6 years ago
10.3390/s20185374
A Visual Tracker Offering More SolutionsCited by: 2
Author(s): Long Zhao, Mubarak Adam Ishag Mahmoud, Hongxiang Ren, Meng Zhu
Software Mentions: 1
Published: about 4 years ago
10.3390/s21030831
Affimer-Based Europium Chelates Allow Sensitive Optical Biosensing in a Range of Human Disease BiomarkersCited by: 8
Author(s): Eiman Al-Enezi, Alexander Vakurov, Amy Eades, Mingyu Ding, Gin Jose, Sikha Saha, Paul A. Millner
Software Mentions: 1
Published: almost 4 years ago
10.3390/s21051675
Communication Planning for Cooperative Terrain-Based Underwater LocalizationCited by: 5
Author(s): Jacob Anderson, Geoffrey A. Hollinger
Software Mentions: 1
Published: over 3 years ago
10.1186/s12875-021-01443-7
Patient perspectives on tablet-based technology to collect risk factor information in primary careCited by: 1
Author(s): Leanne Kosowan, Alan Katz, Gayle Halas, Alexander Singer
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0241624
The impact of integrating electronic referral within a musculoskeletal model of care on wait time to receive orthopedic care in OntarioCited by: 0
Author(s): Heba Tallah Mohammed, Lori-Anne Payson, Mohamed Alarakhia
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0045309
Microbial Distribution and Abundance in the Digestive System of Five Shipworm Species (Bivalvia: Teredinidae)Cited by: 49
Author(s): Meghan A. Betcher, Jennifer M. Fung, Andrew Han, Roberta M. O’Connor, Romell A. Seronay, Gisela P. Concepción, Daniel L. Distel, Margo G. Haygood
Software Mentions: 1
Published: about 12 years ago
10.3390/e22090953
A Note on the Reproducibility of Chaos SimulationCited by: 8
Author(s): Thalita E. Nazaré, Erivelton G. Nepomuceno, Samir A. M. Martins, Denis N. Butusov
Software Mentions: 1
Published: about 4 years ago
10.3390/jimaging5100079
A Contrast-Guided Approach for the Enhancement of Low-Lighting Underwater ImagesCited by: 26
Author(s): Tunai Porto Marques, Alexandra Branzan Albu, Maia Hoeberechts
Software Mentions: 1
Published: about 5 years ago
10.1371/journal.pone.0154887
Underwater Optics in Sub-Antarctic and Antarctic Coastal EcosystemsCited by: 19
Author(s): Pirjo Huovinen, Jaime Ramírez, Iván Gómez
Software Mentions: 1
Published: over 8 years ago
10.3389/fpls.2020.00789
New Food Crop Domestication in the Age of Gene Editing: Genetic, Agronomic and Cultural Change Remain Co-evolutionarily EntangledCited by: 47
Author(s): David L. Van Tassel, Omar Tesdell, Brandon Schlautman, Matthew J. Rubin, Lee R. DeHaan, Timothy E. Crews, Aubrey Streit Krug
Software Mentions: 1
Published: over 4 years ago